Charlie19a
Basic information Differential Expression Stage analysis Survival analysis Correlation analysis| DF ID | DF0000096 |
|---|---|
| TE superfamily | Charlie |
| TE class | DNA |
| Species | Eutheria |
| Length | 386 |
| Kimura value | 31.34 |
| Tau index | 0.8811 |
| Description | hAT-Charlie DNA transposon, Charlie19a subfamily (non-autonomous) |
| Comment | 16 bp TIRs. |
| Sequence |
CAGTGGTTCCCAACCTGGGGTCCCCGGACCCTAGGGGTCCNTGAAGGTAGTAATGGGGGTCTNCGAGCTATTTTCAATATTTCAAAAAGCCTAACGGAAATCGTACATTTACCCGCGATAAGGCTGCACAGGCTAACTAAAACGTCAAGTTTCTTTGCTTTTGGCTGGAATTATATCAACTCAGTGTGGTAACACTGGTTATCTCATGCTGATCAGAAGCTCTGATTGGCAGTTATATATGTCTTTGATTAATAAAAAATGGGGAAAAAATNAATTATTACTTAATAAATGCAGTTTGTTTGGTAGACAAAATCTTTCAAAACATGGGGTCCATGGGGGAAAATAATAAAAGGGGTCCTTGGTGGTGAAAAGGTTGGGAACCACTG
|
TF motifs of the concenus sequence
Use FIMO to detect transcription factor motifs in the concenus sequence of the TE family.
| TE_family | TFBS | Start | End | Strand | Score | Matched sequence |
|---|---|---|---|---|---|---|
| Charlie19a | CIN5 | 277 | 286 | + | 12.87 | ATTACTTAAT |
| Charlie19a | ATHB-13 | 273 | 280 | - | 12.84 | TAATAATT |
| Charlie19a | DAL80 | 116 | 122 | + | 12.77 | CGATAAG |
| Charlie19a | MYB40 | 298 | 307 | - | 12.67 | TCTACCAAAC |
| Charlie19a | SPT15 | 233 | 243 | - | 12.59 | GACATATATAA |
| Charlie19a | YRM1 | 95 | 101 | + | 12.56 | CGGAAAT |
| Charlie19a | Zm00001d044785 | 117 | 123 | - | 12.54 | CCTTATC |
| Charlie19a | ZBTB24 | 353 | 362 | - | 12.46 | CCAAGGACCC |
| Charlie19a | NAC062 | 278 | 284 | - | 12.45 | TAAGTAA |
| Charlie19a | TCF7 | 243 | 249 | + | 12.42 | CTTTGAT |
TFBS enrichment in GRCh38
Use Fisher's exact test to perform enrichment analysis of transcription factor binding sites in the TE family of GRCh38.
